Gene-based examples for the annotation of TIS for the AMD1 (A) and TOP2A (B) genes in the presented data set: Screenshots from the online resource (the annotation tracks at http://gengastro.1med.uni-kiel.de/suppl/footprint/) are provided. The network-identified TISs are marked in gray and are numbered consecutively along the genome assembly for each RefSeq sequence. The classification results of TIS according to the algorithm in Figure 2 are noted in red. In addition to the markings provided in the online resource, the open reading frames are highlighted with red arrows for uORFs, a blue arrow for the N-terminal protein extension of TOP2A, and green arrows for the annotated CDS of the two genes. (A) Previously known uORF at network-predicted TIS NM_001634:1. An additional internal network-predicted TIS is present in this uORF and was thus not annotated independently as noted in the results. (B) A novel uORF at network-predicted TIS NM_001067:3 and a novel N-terminal protein extension at network-predicted TIS NM_001067:2 are shown. The annotated AUG TISs are detected in both genes.
